Reference on EC 3.1.26.4 - ribonuclease H
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REF. 
AUTHORS
TITLE
JOURNAL
VOL.
PAGES
YEAR
ORGANISM (UNIPROT)
PUBMED ID
SOURCE
Crouch, R.J.; Dirksen, M.L.
Ribonuclease H
Cold Spring Harbor Monogr. Ser.
14
211-254
1982
Bos taurus, Saccharomyces cerevisiae, Escherichia coli, Homo sapiens, Mus musculus, Rattus norvegicus, Xenopus laevis
-
Wyers, F.; Sentenac, A.; Fromageot, P.
Role of DNA-RNA hybrids in eukaryotes
Eur. J. Biochem.
69
377-383
1976
Saccharomyces cerevisiae
-
Wyers, F.; Huet, J.; Sentenac, A.; Fromageot, P.
Role of DNA-RNA hybrids in eukaryotes. Characterization of yeast ribonuclease H1 and H2
Eur. J. Biochem.
69
385-395
1976
Saccharomyces cerevisiae
-
Wintersberger, U.; Kuhne, C.; Karwan, R.
Three ribonucleases H and a reverse transcriptase from the yeast, Saccharomyces cerevisiae
Biochim. Biophys. Acta
951
322-329
1988
Saccharomyces cerevisiae
Itaya, M.
Isolation and characterization of a second RNase H (RNase HII) of Escherichia coli K-12 encoded by the rnhB gene
Proc. Natl. Acad. Sci. USA
87
8587-8591
1990
Escherichia coli
Haberkern, R.C.; Cantoni, G.L.
Studies on a calf thymus ribonuclease specific for ribonucleic acid-deoxyribonucleic acid hybrids
Biochemistry
12
2389-2395
1973
Bos taurus
Stavrianopoulos, J.G.; Chargaff, E.
Purification and properties of ribonuclease H of calf thymus
Proc. Natl. Acad. Sci. USA
70
1959-1963
1973
Bos taurus
Stavrianopoulos, J.G.; Gambino-Giuffrida, A.; Chargraff, E.
Ribonuclease H of calf thymus: substrate specificity, activation, inhibition
Proc. Natl. Acad. Sci. USA
73
1087-1091
1976
Bos taurus
Stavrianopoulos, J.G.; Chargaff, E.
Simplified method for purification of ribonuclease H from calf thymus
Proc. Natl. Acad. Sci. USA
75
4140-4144
1978
Bos taurus
Buesen, W.
Purification, subunit structure, and serological analysis of calf thymus ribonuclease H I
J. Biol. Chem.
255
9434-9443
1980
Bos taurus
Buesen, W.
The subunit structure of calf thymus ribonuclease H I as revealed by immunological analysis
J. Biol. Chem.
257
7106-7108
1982
Bos taurus
Rong, Y.W.; Carl, P.L.
On the molecular weight and subunit composition of calf thymus ribonuclease H1
Biochemistry
29
383-389
1990
Bos taurus
Henry, C.M.; Ferdinand, F.J.; Knippers, R.
A hybridase from Escherichia coli
Biochem. Biophys. Res. Commun.
50
603-611
1973
Escherichia coli
Miller, H.I.; Riggs, A.D.; Gill, G.N.
Ribonuclease H (hybrid) in Escherichia coli. Identification and characterization
J. Biol. Chem.
248
2621-2624
1973
Escherichia coli
Berkower, I.; Leis, J.; Hurwitz, J.
Isolation and characterization of an endonuclease from Escherichia coli specific for ribonucleic acid in ribonucleic acid-deoxyribonucleic acid hybrid structures
J. Biol. Chem.
248
5914-5921
1973
Escherichia coli
Kanaya, S.; Kohara, A.; Miyagawa, M.; Matsuzaki, T.; Morikawa, K.; Ikehara, M.
Overproduction and preliminary crystallographic study of ribonuclease H from Escherichia coli
J. Biol. Chem.
264
11546-11549
1989
Escherichia coli
Cheriathundam, E.; Chang, L.M.S.
Purification and properties of two ribonuclease H enzymes from yeast
Arch. Biochem. Biophys.
219
110-120
1982
Saccharomyces cerevisiae
Karwan, R.; Kuehne, C.; Winterberger, U.
Ribonuclease H(70) from Saccharomyces cerevisiae possesses cryptic reverse transcriptase activity
Proc. Natl. Acad. Sci. USA
83
5919-5923
1986
Saccharomyces cerevisiae
Karwan, R.; Wintersberger, U.
Yeast ribonuclease H(70) cleaves RNA-DNA junctions
FEBS Lett.
206
189-192
1986
Saccharomyces cerevisiae
Karwan, R.; Wintersberger, U.
In addition to RNase H(70) two other proteins of Saccharomyces cerevisiae exhibit ribonuclease H activity
J. Biol. Chem.
263
14970-14977
1988
Saccharomyces cerevisiae
Sekeris, C.E.; Roewekamp, W.
Inhibitory effects of rifampicin and some derivatives on ribonuclease H (hybridase) from rat liver
FEBS Lett.
23
34-36
1972
Rattus norvegicus
Roewekamp, W.; Sekeris, C.E.
Purification and characteristics of hybridase (ribonuclease H) from rat-liver cytosol
Eur. J. Biochem.
43
405-413
1974
Rattus norvegicus
Tashiro, F.; Ueno, Y.
Ribonuclease H from rat liver. I. Partial purification and characterization of nuclear ribonuclease H1
J. Biochem.
84
385-393
1978
Rattus norvegicus
Tashiro, F.; Ueno, Y.
Ribonuclease H from rat liver. II. Partial purification and characterization of cytosol ribonuclease H
J. Biochem.
84
395-402
1978
Rattus norvegicus
Sawai, Y.; Unno, M.; Tsukada, K.
Two ribonuclease H activities from rat liver nuclei
Biochem. Biophys. Res. Commun.
84
313-321
1978
Rattus norvegicus
Sawai, Y.; Yanokura, M.; Tsukada, K.
Multiple forms of ribonuclease H from rat liver cytosol
J. Biochem.
86
757-764
1979
Rattus norvegicus
Dirksen, M.L.; Crouch, R.J.
Selective inhibition of RNase H by dextran
J. Biol. Chem.
256
11569-11573
1981
Escherichia coli
Kitahara, N.; Sawai, Y.; Tsukada, K.
Purification and properties of magnesium- and manganese-dependent ribonucleases H from chick embryo
J. Biochem.
92
855-864
1982
Gallus gallus
Sawai, Y.; Sugano, N.; Tsukada, K.
Ribonuclease H activity in cultured plant cells
Biochim. Biophys. Acta
518
181-185
1978
Daucus carota, Daucus carota GD-2
Sawai, Y.; Uchida, S.; Saito, J.; Sugano, N.; Tsukada, K.
Two ribonucleases H from cultured plant cells
J. Biochem.
85
1301-1308
1979
Daucus carota, Daucus carota GD-2
Cooper, R.J.; Duff, P.M.; Craig, O.R.K.; Keir, H.M.
Multiple ribonuclease H activities from BHK-21-C13 cells
FEBS Lett.
45
38-43
1974
Mesocricetus auratus
Tashiro, F.; Mita, T.
Multiple forms of nuclear ribonuclease H from Tetrahymena pyriformis
Eur. J. Biochem.
65
123-130
1976
Tetrahymena pyriformis, Tetrahymena pyriformis GI
Banks, G.R.
A ribonuclease H from Ustilago maydis. Properties, mode of action and substrate specificity of the enzyme
Eur. J. Biochem.
47
499-507
1974
Ustilago maydis
O'Cuinn, G.; Persico, F.J.; Gottlieb, A.A.
Two ribonuclease H activities from the murine myeloma, MOPC-21
Biochim. Biophys. Acta
324
78-85
1973
Mus musculus
Cathala, G.; Rech, J.; Huet, J.; Jeanteur, P.
Isolation and characterization of two types of ribonucleases H in Krebs II ascites cells
J. Biol. Chem.
254
7353-7361
1979
Mus musculus
Kanaya, S.; Nakai, C.; Konishi, A.; Inoue, H.; Ohtsuka, E.; Ikehara, M.
A hybrid ribonuclease H. A novel RNA cleaving enzyme with sequence-specific recognition
J. Biol. Chem.
267
8492-8498
1992
Escherichia coli
Yang, W.; Hendrickson, W.A.; Kalman, E.T.; Crouch, R.J.
Expression, purification, and crystallization of natural and selenomethionyl recombinant ribonuclease H from Escherichia coli
J. Biol. Chem.
265
13553-13559
1990
Escherichia coli
Nakai, C.; Konishi, A.; Komatsu, Y.; Inoue, H.; Ohtsuka, E.M.; Kanaya, S.
Sequence-specific cleavage of RNA by hybrid ribonuclease H
FEBS Lett.
339
67-72
1994
Escherichia coli
Kanaya, S.; Itaya, M.
Expression, purification, and characterization of a recombinant ribonuclease H from Thermus thermophilus HB8
J. Biol. Chem.
267
10184-10192
1992
Escherichia coli, Thermus thermophilus, Thermus thermophilus HB8 / ATCC 27634 / DSM 579
Huang, H.W.; Cowan, J.A.
Metallobiochemistry of the magnesium ion. Characterization of the essential metal-binding site in Escherichia coli ribonuclease H
Eur. J. Biochem.
219
253-260
1994
Escherichia coli
Dabora, J.M.; Marqusee, S.
Equilibrium unfolding of Escherichia coli ribonuclease H: characterization of a partially folded state
Protein Sci.
3
1401-1408
1994
Escherichia coli
Frank, P.; Albert, S.; Cazenave, C.; Toulme, J.J.
Purification and characterization of human ribonuclease HI
Nucleic Acids Res.
22
5247-5254
1994
Homo sapiens
Cazenave, C.; Frank, P.; Toulme, J.J.; Buesen, W.
Characterization and subcellular localization of ribonuclease H activities from Xenopus leavis oocytes
J. Biol. Chem.
269
25185-25192
1994
Xenopus laevis
Eder, P.S.; Walder, J.A.
Ribonuclease H from K562 human erythroleukemia cells. Purification, characterization, and substrate specificity
J. Biol. Chem.
266
6472-6479
1991
Homo sapiens
Cazenave, C.; Frank, P.; Buesen, W.
Characterization of ribonuclease H activities present in two cell-free protein synthesizing systems, the wheat germ extract and the rabbit reticulocyte lysate
Biochimie
75
113-122
1993
Oryctolagus cuniculus, Triticum aestivum
Vonwirth, H.; Frank, P.; Buesen, W.
Calf thymus ribonuclease H IIa activity lacks ribonuclease H specificity
Experientia
46
319-321
1990
Bos taurus
Kobil, J.H.; Campbell, A.G.
Functional analysis of the domain organization of Trypanosoma brucei RNase HI
Biochem. Biophys. Res. Commun.
270
336-342
2000
Trypanosoma brucei
Hirano, N.; Haruki, M.; Morikawa, M.; Kanaya, S.
Enhancement of the enzymatic activity of ribonuclease HI from Thermus thermophilus HB8 with a suppressor mutation method
Biochemistry
39
13285-13294
2000
Thermus thermophilus, Thermus thermophilus HB8 / ATCC 27634 / DSM 579
Tsunaka, Y.; Haruki, M.; Morikawa, M.; Oobatake, M.; Kanaya, S.
Dispensability of glutamic acid 48 and aspartic acid 134 for Mn2+-dependent activity of Escherichia coli ribonuclease HI
Biochemistry
42
3366-3374
2003
Escherichia coli (P0A7Y4), Escherichia coli
Lai, B.; Li, Y.; Cao, A.; Lai, L.
Metal ion binding and enzymatic mechanism of Methanococcus jannaschii RNase HII
Biochemistry
42
785-791
2003
Methanocaldococcus jannaschii
ten Asbroek, A.L.M.A.; Van Groenigen, M.; Nooij, M.; Baas, F.
The involvement of human ribonucleases H1 and H2 in the variation of response of cells to antisense phosphorothioate oligonucleotides
Eur. J. Biochem.
269
583-592
2002
Homo sapiens
Mangos, M.M.; Min, K.L.; Viazovkina, E.; Galarneau, A.; Elzagheid, M.I.; Parniak, M.A.; Damha, M.J.
Efficient RNase H-directed cleavage of RNA promoted by antisense DNA or 2'F-ANA constructs containing acyclic nucleotide inserts
J. Am. Chem. Soc.
125
654-661
2003
Escherichia coli, Homo sapiens
Ohtani, N.; Haruki, M.; Muroya, A.; Morikawa, M.; Kanaya, S.
Characterization of ribonuclease HII from Escherichia coli overproduced in a soluble form
J. Biochem.
127
895-899
2000
Escherichia coli
Bhagwat, M.; Nossal, N.G.
Bacteriophage T4 RNase H removes both RNA primers and adjacent DNA from the 5' end of lagging strand fragments
J. Biol. Chem.
276
28516-28524
2001
Tequatrovirus T4
Lima, W.F.; Wu, H.; Nichols, J.G.; Manalili, S.M.; Drader, J.J.; Hofstadler, S.A.; Crooke, S.T.
Human RNase H1 activity is regulated by a unique redox switch formed between adjacent cysteines
J. Biol. Chem.
278
14906-14912
2003
Homo sapiens
Chapados, B.R.; Chai, Q.; Hosfield, D.J.; Qiu, J.; Shen, B.; Tainer, J.A.
Structural biochemistry of a type 2 RNase H: RNA primer recognition and removal during DNA replication
J. Mol. Biol.
307
541-556
2001
Archaeoglobus fulgidus (O29634), Archaeoglobus fulgidus
Gromiha, M.M.
Factors influencing the stability of alpha-helices and beta-strands in thermophilic ribonuclease H
Prep. Biochem. Biotechnol.
31
103-112
2001
Thermus thermophilus
Rydberg, B.; Game, J.
Excision of misincorporated ribonucleotides in DNA by RNase H (type 2) and FEN-1 in cell-free extracts
Proc. Natl. Acad. Sci. USA
99
16654-16659
2002
Saccharomyces cerevisiae, Escherichia coli, Homo sapiens, Pyrococcus furiosus
Haruki, M.; Nogawa, T.; Hirano, N.; Chon, H.; Tsunaka, Y.; Morikawa, M.; Kanaya, S.
Efficient cleavage of RNA at high temperatures by a thermostable DNA-linked ribonuclease H
Protein Eng.
13
881-886
2000
Escherichia coli, Thermus thermophilus
Muroya, A.; Tsuchiya, D.; Ishikawa, M.; Haruki, M.; Morikawa, M.; Kanaya, S.; Morikawa, K.
Catalytic center of an archaeal type 2 ribonuclease H as revealed by X-ray crystallographic and mutational analyses
Protein Sci.
10
707-714
2001
Thermococcus kodakarensis
Goedken, E.R.; Keck, J.L.; Berger, J.M.; Marqusee, S.
Divalent metal cofactor binding in the kinetic folding trajectory of Escherichia coli ribonuclease HI
Protein Sci.
9
1914-1921
2000
Escherichia coli
Fang, S.; Lee, H.J.; Wark, A.W.; Kim, H.M.; Corn, R.M.
Determination of ribonuclease H surface enzyme kinetics by surface plasmon resonance imaging and surface plasmon fluorescence spectroscopy
Anal. Chem.
77
6528-6534
2005
Escherichia coli
Chon, H.; Nakano, R.; Ohtani, N.; Haruki, M.; Takano, K.; Morikawa, M.; Kanaya, S.
Gene cloning and biochemical characterizations of thermostable ribonuclease HIII from Bacillus stearothermophilus
Biosci. Biotechnol. Biochem.
68
2138-2147
2004
Geobacillus stearothermophilus (Q6L6Q4), Geobacillus stearothermophilus
Nowotny, M.; Yang, W.
Stepwise analyses of metal ions in RNase H catalysis from substrate destabilization to product release
EMBO J.
25
1924-1933
2006
Homo sapiens, Halalkalibacterium halodurans (Q9KEI9)
Chon, H.; Tadokoro, T.; Ohtani, N.; Koga, Y.; Takano, K.; Kanaya, S.
Identification of RNase HII from psychrotrophic bacterium, Shewanella sp. SIB1 as a high-activity type RNase H
FEBS J.
273
2264-2275
2006
Escherichia coli (P10442), Escherichia coli, Shewanella sp. (Q25C12), Shewanella sp. SIB1 (Q25C12)
Kochiwa, H.; Itaya, M.; Tomita, M.; Kanai, A.
Stage-specific expression of Caenorhabditis elegans ribonuclease H1 enzymes with different substrate specificities and bivalent cation requirements
FEBS J.
273
420-429
2006
Caenorhabditis elegans
Lima, W.F.; Nichols, J.G.; Wu, H.; Prakash, T.P.; Migawa, M.T.; Wyrzykiewicz, T.K.; Bhat, B.; Crooke, S.T.
Structural Requirements at the catalytic site of the heteroduplex substrate for human RNase H1 catalysis
J. Biol. Chem.
279
36317-36326
2004
Homo sapiens
Tsunaka, Y.; Takano, K.; Matsumura, H.; Yamagata, Y.; Kanaya, S.
Identification of single Mn2+ binding sites required for activation of the mutant proteins of E. coli RNase HI at Glu48 and/or Asp134 by X-ray crystallography
J. Mol. Biol.
345
1171-1183
2005
Escherichia coli
Chon, H.; Matsumura, H.; Koga, Y.; Takano, K.; Kanaya, S.
Crystal structure and structure-based mutational analyses of RNase HIII from Bacillus stearothermophilus: a new type 2 RNase H with TBP-like substrate-binding domain at the N terminus
J. Mol. Biol.
356
165-178
2006
Geobacillus stearothermophilus (Q6L6Q4), Geobacillus stearothermophilus
Misra, S.; Bennett, J.; Friew, Y.N.; Abdulghani, J.; Irvin-Wilson, C.V.; Tripathi, M.K.; Williams, S.; Chaudhuri, M.; Chaudhuri, G.
A type II ribonuclease H from Leishmania mitochondria: an enzyme essential for the growth of the parasite
Mol. Biochem. Parasitol.
143
135-145
2005
Leishmania donovani (Q8WR57), Leishmania major (Q8WSZ0)
Budihas, S.R.; Gorshkova, I.; Gaidamakov, S.; Wamiru, A.; Bona, M.K.; Parniak, M.A.; Crouch, R.J.; McMahon, J.B.; Beutler, J.A.; Le Grice, S.F.J.
Selective inhibition of HIV-1 reverse transcriptase-associated ribonuclease H activity by hydroxylated tropolones
Nucleic Acids Res.
33
1249-1256
2005
Escherichia coli, Homo sapiens
Livesay, D.R.; Jacobs, D.J.
Conserved quantitative stability/flexibility relationships (QSFR) in an orthologous RNase H pair
Proteins
62
130-143
2006
Escherichia coli, Thermus thermophilus
Loukachevitch, L.V.; Egli, M.
Crystallization and preliminary X-ray analysis of Escherichia coli RNase HI-dsRNA complexes
Acta Crystallogr. Sect. F
63
84-88
2007
Escherichia coli
Tang, X.; Dmochowski, I.J.
Controlling RNA digestion by RNase H with a light-activated DNA hairpin
Angew. Chem.
45
3523-3526
2006
Homo sapiens
Honcharenko, D.; Barman, J.; Varghese, O.P.; Chattopadhyaya, J.
Comparison of the RNase H cleavage kinetics and blood serum stability of the north-conformationally constrained and 2-alkoxy modified oligonucleotides
Biochemistry
46
5635-5646
2007
Escherichia coli
Patureau, B.M.; Hudson, R.H.; Damha, M.J.
Induction of RNase H activity by arabinose-peptide nucleic acid chimeras
Bioconjug. Chem.
18
421-430
2007
Homo sapiens
Bastock, J.A.; Webb, M.; Grasby, J.A.
The pH-dependence of the Escherichia coli RNase HII-catalysed reaction suggests that an active site carboxylate group participates directly in catalysis
J. Mol. Biol.
368
421-433
2007
Escherichia coli
Yarrington, R.M.; Chen, J.; Bolton, E.C.; Boeke, J.D.
Mn2+ suppressor mutations and biochemical communication between Ty1 reverse transcriptase and RNase H domains
J. Virol.
81
9004-9012
2007
Saccharomyces cerevisiae
Liang, R.; Liu, X.; Pei, D.; Liu, J.
Biochemical characterization and functional complementation of ribonuclease HII and ribonuclease HIII from Chlamydophila pneumoniae AR39
Microbiology
153
787-793
2007
Chlamydia pneumoniae, Chlamydia pneumoniae AR39
Lima, W.F.; Rose, J.B.; Nichols, J.G.; Wu, H.; Migawa, M.T.; Wyrzykiewicz, T.K.; Vasquez, G.; Swayze, E.E.; Crooke, S.T.
The positional influence of the helical geometry of the heteroduplex substrate on human RNase H1 catalysis
Mol. Pharmacol.
71
73-82
2007
Homo sapiens
Lima, W.F.; Rose, J.B.; Nichols, J.G.; Wu, H.; Migawa, M.T.; Wyrzykiewicz, T.K.; Siwkowski, A.M.; Crooke, S.T.
Human RNase H1 discriminates between subtle variations in the structure of the heteroduplex substrate
Mol. Pharmacol.
71
83-91
2007
Homo sapiens
Hou, J.; Liu, X.; Zheng, Y.; Liu, J.
A method for HLA genotyping using the specific cleavage of DNA-rN1-DNA/DNA with RNase HII from Chlamydia pneumoniae
Oligonucleotides
17
433-443
2007
Chlamydia pneumoniae
Pallan, P.S.; Egli, M.
Insights into RNA/DNA hybrid recognition and processing by RNase H from the crystal structure of a non-specific enzyme-dsDNA complex
Cell Cycle
7
2562-2569
2008
Halalkalibacterium halodurans (Q9KEI9)
Moriguchi, T.; Sakai, H.; Suzuki, H.; Shinozuka, K.
Spermine moiety attached to the C-5 position of deoxyuridine enhances the duplex stability of the phosphorothioate DNA/complementary DNA and shows the susceptibility of the substrate to RNase H
Chem. Pharm. Bull.
56
1259-1263
2008
Escherichia coli
De Vivo, M.; Dal Peraro, M.; Klein, M.L.
Phosphodiester cleavage in ribonuclease H occurs via an associative two-metal-aided catalytic mechanism
J. Am. Chem. Soc.
130
10955-10962
2008
Halalkalibacterium halodurans (Q9KEI9)
Fuji, H.; Urano, E.; Futahashi, Y.; Hamatake, M.; Tatsumi, J.; Hoshino, T.; Morikawa, Y.; Yamamoto, N.; Komano, J.
Derivatives of 5-nitrofuran-2-carboxylic acid carbamoyl methyl ester inhibit RNase H activity associated with HIV-1 reverse transcriptase
J. Med. Chem.
52
1380-1387
2009
Homo sapiens
Zhou, Z.; Feng, H.; Ghirlando, R.; Bai, Y.
The high-resolution NMR structure of the early folding intermediate of the Thermus thermophilus ribonuclease H
J. Mol. Biol.
384
531-539
2008
Thermus thermophilus (P29253), Thermus thermophilus
Bigot, A.; Raynaud, C.; Dubail, I.; Dupuis, M.; Hossain, H.; Hain, T.; Chakraborty, T.; Charbit, A.
lmo1273, a novel gene involved in Listeria monocytogenes virulence
Microbiology
155
891-902
2009
Listeria monocytogenes EGD-e (Q8Y7K4)
Salon, J.; Jiang, J.; Sheng, J.; Gerlits, O.O.; Huang, Z.
Derivatization of DNAs with selenium at 6-position of guanine for function and crystal structure studies
Nucleic Acids Res.
36
7009-7018
2008
Halalkalibacterium halodurans (Q9KEI9)
Watkins, H.A.; Baker, E.N.
Structural and functional characterisation of an RNase HI domain from the bifunctional protein Rv2228c from Mycobacterium tuberculosis
J. Bacteriol.
192
2878-2886
2010
Mycobacterium tuberculosis (P9WLH5), Mycobacterium tuberculosis, Mycobacterium tuberculosis H37Rv (P9WLH5)
Kitamura, S.; Fujishima, K.; Sato, A.; Tsuchiya, D.; Tomita, M.; Kanai, A.
Characterization of RNase HII substrate recognition using RNase HII-argonaute chimaeric enzymes from Pyrococcus furiosus
Biochem. J.
426
337-344
2010
Pyrococcus furiosus (Q8U036), Pyrococcus furiosus
Ratcliff, K.; Corn, J.; Marqusee, S.
Structure, stability, and folding of ribonuclease H1 from the moderately thermophilic Chlorobium tepidum: comparison with thermophilic and mesophilic homologues
Biochemistry
48
5890-5898
2009
Chlorobaculum tepidum (Q93SU7), Chlorobaculum tepidum
Hu, D.; Pu, F.; Huang, Z.; Ren, J.; Qu, X.
A quadruplex-based, label-free, and real-time fluorescence assay for RNase H activity and inhibition
Chemistry
16
2605-2610
2010
Escherichia coli
Rohman, M.S.; Tadokoro, T.; Angkawidjaja, C.; Abe, Y.; Matsumura, H.; Koga, Y.; Takano, K.; Kanaya, S.
Destabilization of psychrotrophic RNase HI in a localized fashion as revealed by mutational and X-ray crystallographic analyses
FEBS J.
276
603-613
2009
Shewanella oneidensis MR-1 (Q8EE30)
Shaban, N.M.; Harvey, S.; Perrino, F.W.; Hollis, T.
The structure of the mammalian RNase H2 complex provides insight into RNA.NA hybrid processing to prevent immune dysfunction
J. Biol. Chem.
285
3617-3624
2010
Mus musculus (Q9CWY8), Mus musculus
Schmitt, T.J.; Clark, J.E.; Knotts, T.A.
Thermal and mechanical multistate folding of ribonuclease H
J. Chem. Phys.
131
235101
2009
Escherichia coli
Rosta, E.; Woodcock, H.L.; Brooks, B.R.; Hummer, G.
Artificial reaction coordinate "tunneling" in free-energy calculations: the catalytic reaction of RNase H
J. Comput. Chem.
30
1634-1641
2009
Halalkalibacterium halodurans
Connell, K.B.; Miller, E.J.; Marqusee, S.
The folding trajectory of RNase H is dominated by its topology and not local stability: a protein engineering study of variants that fold via two-state and three-state mechanisms
J. Mol. Biol.
391
450-460
2009
Escherichia coli
Connell, K.B.; Horner, G.A.; Marqusee, S.
A single mutation at residue 25 populates the folding intermediate of E. coli RNase H and reveals a highly dynamic partially folded ensemble
J. Mol. Biol.
391
461-470
2009
Escherichia coli (P0A7Y4), Escherichia coli
Fluiter, K.; Mook, O.R.; Vreijling, J.; Langkjaer, N.; Hojland, T.; Wengel, J.; Baas, F.
Filling the gap in LNA antisense oligo gapmers: the effects of unlocked nucleic acid (UNA) and 4-C-hydroxymethyl-DNA modifications on RNase H recruitment and efficacy of an LNA gapmer
Mol. Biosyst.
5
838-843
2009
Homo sapiens
Chon, H.; Vassilev, A.; DePamphilis, M.L.; Zhao, Y.; Zhang, J.; Burgers, P.M.; Crouch, R.J.; Cerritelli, S.M.
Contributions of the two accessory subunits, RNASEH2B and RNASEH2C, to the activity and properties of the human RNase H2 complex
Nucleic Acids Res.
37
96-110
2009
Homo sapiens, Homo sapiens (Q5TBB1), Homo sapiens (Q8TDP1)
Kauffmann, A.; Campagna, R.; Bartels, C.; Childs-Disney, J.
Improvement of RNA secondary structure prediction using RNase H cleavage and randomized oligonucleotides
Nucleic Acids Res.
37
e121
2009
Escherichia coli
Reiling, S.A.; Homma, K.; Asojo, O.A.
Purification and crystallization of RNase HIII from Staphylococcus aureus
Acta Crystallogr. Sect. F
67
79-82
2011
Staphylococcus aureus, Staphylococcus aureus MRSA252
Zhan, K.; He, Z.G.
Characterization of a new RNase HII and its essential amino acid residues in the archaeon Sulfolobus tokodaii reveals a regulatory C-terminus
Biochemistry (Moscow)
75
930-937
2010
Sulfurisphaera tokodaii
Ratcliff, K.; Marqusee, S.
Identification of residual structure in the unfolded state of ribonuclease H1 from the moderately thermophilic Chlorobium tepidum: comparison with thermophilic and mesophilic homologues
Biochemistry
49
5167-5175
2010
Chlorobaculum tepidum, Thermus thermophilus
Johnson, C.N.; Spring, A.M.; Sergueev, D.; Shaw, B.R.; Germann, M.W.
Structural basis of the RNase H1 activity on stereo regular borano phosphonate DNA/RNA hybrids
Biochemistry
50
3903-3912
2011
Homo sapiens
Ruhanen, H.; Ushakov, K.; Yasukawa, T.
Involvement of DNA ligase III and ribonuclease H1 in mitochondrial DNA replication in cultured human cells
Biochim. Biophys. Acta
1813
2000-2007
2011
Homo sapiens
Jongruja, N.; You, D.J.; Kanaya, E.; Koga, Y.; Takano, K.; Kanaya, S.
The N-terminal hybrid binding domain of RNase HI from Thermotoga maritima is important for substrate binding and Mg2+-dependent activity
FEBS J.
277
4474-4489
2010
Thermotoga maritima (Q9X122)
Miyashita, S.; Tadokoro, T.; Angkawidjaja, C.; You, D.J.; Koga, Y.; Takano, K.; Kanaya, S.
Identification of the substrate binding site in the N-terminal TBP-like domain of RNase H3
FEBS Lett.
585
2313-2317
2011
Geobacillus stearothermophilus (Q6L6Q4), Geobacillus stearothermophilus
Le Laz, S.; Le Goaziou, A.; Henneke, G.
Structure-specific nuclease activities of Pyrococcus abyssi RNase HII
J. Bacteriol.
192
3689-3698
2010
Pyrococcus abyssi
Reijns, M.A.; Bubeck, D.; Gibson, L.C.; Graham, S.C.; Baillie, G.S.; Jones, E.Y.; Jackson, A.P.
The structure of the human RNase H2 complex defines key interaction interfaces relevant to enzyme function and human disease
J. Biol. Chem.
286
10530-10539
2011
Homo sapiens (O75792), Homo sapiens
Figiel, M.; Chon, H.; Cerritelli, S.M.; Cybulska, M.; Crouch, R.J.; Nowotny, M.
The structural and biochemical characterization of human RNase H2 complex reveals the molecular basis for substrate recognition and Aicardi-Goutieres syndrome defects
J. Biol. Chem.
286
10540-10550
2011
Homo sapiens
Liu, Y.; Xu, J.; Karimiahmadabadi, M.; Zhou, C.; Chattopadhyaya, J.
Synthesis of 2,4-propylene-bridged (carba-ENA) thymidine and its analogues: the engineering of electrostatic and steric effects at the bottom of the minor groove for nuclease and thermodynamic stabilities and elicitation of RNase H
J. Org. Chem.
75
7112-7128
2010
Homo sapiens
Suzuki, Y.; Holmes, J.B.; Cerritelli, S.M.; Sakhuja, K.; Minczuk, M.; Holt, I.J.; Crouch, R.J.
An upstream open reading frame and the context of the two AUG codons affect the abundance of mitochondrial and nuclear RNase H1
Mol. Cell. Biol.
30
5123-5134
2010
Mus musculus
Rychlik, M.P.; Chon, H.; Cerritelli, S.M.; Klimek, P.; Crouch, R.J.; Nowotny, M.
Crystal structures of RNase H2 in complex with nucleic acid reveal the mechanism of RNA-DNA junction recognition and cleavage
Mol. Cell
40
658-670
2010
Thermotoga maritima (Q9X017)
Takano, K.; Okamoto, T.; Okada, J.; Tanaka, S.; Angkawidjaja, C.; Koga, Y.; Kanaya, S.
Stabilization by fusion to the C-terminus of hyperthermophile Sulfolobus tokodaii RNase HI: a possibility of protein stabilization tag
PLoS ONE
6
e16226
2011
Sulfurisphaera tokodaii
Beilhartz, G.; Goette, M.
HIV-1 ribonuclease H: structure, catalytic mechanism and inhibitors
Viruses
2
900-926
2010
Escherichia coli, Homo sapiens
You, D.J.; Chon, H.; Koga, Y.; Takano, K.; Kanaya, S.
Crystal structure of type 1 ribonuclease H from hyperthermophilic archaeon Sulfolobus tokodaii: role of arginine 118 and C-terminal anchoring
Biochemistry
46
11494-11503
2007
Sulfurisphaera tokodaii (F9VN79), Sulfurisphaera tokodaii, Sulfurisphaera tokodaii 7 (F9VN79)
Ohtani, N.; Yanagawa, H.; Tomita, M.; Itaya, M.
Cleavage of double-stranded RNA by RNase HI from a thermoacidophilic archaeon, Sulfolobus tokodaii 7
Nucleic Acids Res.
32
5809-5819
2004
Sulfurisphaera tokodaii (F9VN79), Sulfurisphaera tokodaii, Sulfurisphaera tokodaii 7 (F9VN79)
Chai, Q.; Qiu, J.; Chapados, B.R.; Shen, B.
Archaeoglobus fulgidus RNase HII in DNA replication: enzymological functions and activity regulation via metal cofactors
Biochem. Biophys. Res. Commun.
286
1073-1081
2001
Archaeoglobus fulgidus (O29634), Archaeoglobus fulgidus
Sato, A.; Kanai, A.; Itaya, M.; Tomita, M.
Cooperative regulation for Okazaki fragment processing by RNase HII and FEN-1 purified from a hyperthermophilic archaeon, Pyrococcus furiosus
Biochem. Biophys. Res. Commun.
309
247-252
2003
Pyrococcus furiosus
Bubeck, D.; Reijns, M.A.; Graham, S.C.; Astell, K.R.; Jones, E.Y.; Jackson, A.P.
PCNA directs type 2 RNase H activity on DNA replication and repair substrates
Nucleic Acids Res.
39
3652-3666
2011
Archaeoglobus fulgidus (O29912), Archaeoglobus fulgidus
You, D.J.; Chon, H.; Koga, Y.; Takano, K.; Kanaya, S.
Crystallization and preliminary crystallographic analysis of type 1 RNase H from the hyperthermophilic archaeon Sulfolobus tokodaii 7
Acta Crystallogr. Sect. F
62
781-784
2006
Sulfurisphaera tokodaii (F9VN79), Sulfurisphaera tokodaii 7 (F9VN79)
Chen, L.; Zhang, J.L.; Zheng, Q.C.; Chu, W.T.; Xue, Q.; Zhang, H.X.; Sun C.C.
Influence of C-terminal tail deletion on structure and stability of hyperthermophile Sulfolobus tokodaii RNase HI
J. Mol. Model.
19
2647-2656
2013
Sulfurisphaera tokodaii (F9VN79), Sulfurisphaera tokodaii, Sulfurisphaera tokodaii 7 (F9VN79)
Hou, J.; Liu, Y.; Lu, Z.; Liu, X.; Liu, J.
Biochemical characterization of RNase HII from Aeropyrum pernix
Acta Biochim. Biophys. Sin. (Shanghai)
44
339-346
2012
Aeropyrum pernix (Q9YET5), Aeropyrum pernix, Aeropyrum pernix DSM 11879 (Q9YET5)
Kirby, K.A.; Marchand, B.; Ong, Y.T.; Ndongwe, T.P.; Hachiya, A.; Michailidis, E.; Leslie, M.D.; Sietsema, D.V.; Fetterly, T.L.; Dorst, C.A.; Singh, K.; Wang, Z.; Parniak, M.A.; Sarafianos, S.G.
Structural and inhibition studies of the RNase H function of xenotropic murine leukemia virus-related virus reverse transcriptase
Antimicrob. Agents Chemother.
56
2048-2061
2012
Xenotropic MuLV-related virus (A1Z651), Xenotropic MuLV-related virus
Okada, J.; Koga, Y.; Takano, K.; Kanaya, S.
Slow unfolding pathway of hyperthermophilic Tk-RNase H2 examined by pulse proteolysis using the stable protease Tk-subtilisin
Biochemistry
51
9178-9191
2012
Thermococcus kodakarensis
Lu, Z.; Hou, J.; Wang, Y.; Liu, J.
Involvement of Ser94 in RNase HIII from Chlamydophila pneumoniae in the recognition of a single ribonucleotide misincorporated into double-stranded DNA
Biochim. Biophys. Acta
1824
859-865
2012
Chlamydia pneumoniae, Chlamydia pneumoniae AR39
Jongruja, N.; You, D.J.; Angkawidjaja, C.; Kanaya, E.; Koga, Y.; Kanaya, S.
Structure and characterization of RNase H3 from Aquifex aeolicus
FEBS J.
279
2737-2753
2012
Aquifex aeolicus (O67644)
Alla, N.R.; Nicholson, A.W.
Evidence for a dual functional role of a conserved histidine in RNA-DNA heteroduplex cleavage by human RNase H1
FEBS J.
279
4492-4500
2012
Homo sapiens
Permanasari, E.D.; Angkawidjaja, C.; Koga, Y.; Kanaya, S.
Role of N-terminal extension of Bacillus stearothermophilus RNase H2 and C-terminal extension of Thermotoga maritima RNase H2
FEBS J.
280
5065-5079
2013
Geobacillus stearothermophilus, Thermotoga maritima (Q9X017), Thermotoga maritima DSM 3109 (Q9X017)
Nguyen, T.N.; You, D.J.; Kanaya, E.; Koga, Y.; Kanaya, S.
Crystal structure of metagenome-derived LC9-RNase H1 with atypical DEDN active site motif
FEBS Lett.
587
1418-1423
2013
uncultured organism (E0X765)
Tannous, E.; Yokoyama, K.; You, D.J.; Koga, Y.; Kanaya, S.
A dual role of divalent metal ions in catalysis and folding of RNase H1 from extreme halophilic archaeon Halobacterium sp. NRC-1
FEBS Open Bio
2
345-352
2012
Halobacterium salinarum (Q9HSF6), Halobacterium salinarum NRC 1 (Q9HSF6)
Babu, C.S.; Dudev, T.; Lim, C.
Differential role of the protein matrix on the binding of a catalytic aspartate to Mg2+ vs Ca2+: application to ribonuclease H
J. Am. Chem. Soc.
135
6541-6548
2013
Moloney murine leukemia virus (P03355), Escherichia coli (P0A7Y4)
Rosta, E.; Yang, W.; Hummer, G.
Calcium inhibition of ribonuclease H1 two-metal ion catalysis
J. Am. Chem. Soc.
136
3137-3144
2014
Halalkalibacterium halodurans
White, R.; Saxty, B.; Large, J.; Kettleborough, C.A.; Jackson, A.P.
Identification of small-molecule inhibitors of the ribonuclease H2 enzyme
J. Biomol. Screen.
18
610-620
2013
Homo sapiens
Narayan, A.; Naganathan, A.N.
Evidence for the sequential folding mechanism in RNase H from an ensemble-based model
J. Phys. Chem. B
118
5050-5058
2014
Escherichia coli (P0A7Y4), Thermus thermophilus (P29253)
Ko, C.; Shin, Y.C.; Park, W.J.; Kim, S.; Kim, J.; Ryu, W.S.
Residues Arg703, Asp777, and Arg781 of the RNase H domain of hepatitis B virus polymerase are critical for viral DNA synthesis
J. Virol.
88
154-163
2014
Hepatitis B virus
Allen-Soltero, S.; Martinez, S.L.; Putnam, C.D.; Kolodner, R.D.
A Saccharomyces cerevisiae RNase H2 interaction network functions to suppress genome instability
Mol. Cell. Biol.
34
1521-1534
2014
Saccharomyces cerevisiae
Sparks, J.L.; Chon, H.; Cerritelli, S.M.; Kunkel, T.A.; Johansson, E.; Crouch, R.J.; Burgers, P.M.
RNase H2-initiated ribonucleotide excision repair
Mol. Cell
47
980-986
2012
Saccharomyces cerevisiae
Naka, K.; Koga, M.; Yonesaki, T.; Otsuka, Y.
RNase HI stimulates the activity of RnlA toxin in Escherichia coli
Mol. Microbiol.
91
596-605
2014
Escherichia coli
Chon, H.; Sparks, J.L.; Rychlik, M.; Nowotny, M.; Burgers, P.M.; Crouch, R.J.; Cerritelli, S.M.
RNase H2 roles in genome integrity revealed by unlinking its activities
Nucleic Acids Res.
41
3130-3143
2013
Saccharomyces cerevisiae, Saccharomyces cerevisiae W-303
Figiel, M.; Nowotny, M.
Crystal structure of RNase H3-substrate complex reveals parallel evolution of RNA/DNA hybrid recognition
Nucleic Acids Res.
42
9285-9294
2014
Thermovibrio ammonificans (E8T217), Thermovibrio ammonificans DSM 15698 (E8T217)
Leo, B.; Hartl, M.J.; Schweimer, K.; Mayr, F.; Woehrl, B.M.
Insights into the structure and activity of prototype foamy virus RNase H
Retrovirology
9
14
2012
human foamy virus
Spannaus, R.; Bodem, J.
Determination of the protease cleavage site repertoire - the RNase H but not the RT domain is essential for foamy viral protease activity
Virology
454-455
145-156
2014
Human spumaretrovirus
Kitamura, S.; Fujishima, K.; Sato, A.; Tsuchiya, D.; Tomita, M.; Kanai, A.
Characterization of RNase HII substrate recognition using RNase HII-argonaute chimaeric enzymes from Pyrococcus furiosus
Biochem. J.
426
337-344
2010
Pyrococcus horikoshii OT3 (O59351), Pyrococcus furiosus (Q8U036), Pyrococcus furiosus
Mukaiyama, A.; Takano, K.; Haruki, M.; Morikawa, M.; Kanaya, S.
Kinetically robust monomeric protein from a hyperthermophile
Biochemistry
43
13859-13866
2004
Thermococcus kodakarensis (O74035), Thermococcus kodakarensis, Thermococcus kodakarensis ATCC BAA-918 (O74035)
Jongruja, N.; You, D.; Kanaya, E.; Koga, Y.; Takano, K.; Kanaya, S.
The N-terminal hybrid binding domain of RNase HI from Thermotoga maritima is important for substrate binding and Mg2+-dependent activity
FEBS J.
277
4474-4489
2010
Thermotoga maritima (Q9X122), Thermotoga maritima DSM 3109 (Q9X122)
Zhou, Y.; Zhang, J.; Jiang, Q.; Lu, J.
An allosteric switch-based hairpin for label-free chemiluminescence detection of ribonuclease H activity and inhibitors
Analyst
144
1420-1425
2019
Homo sapiens (O60930)
Villa, J.A.; Pike, D.P.; Patel, K.B.; Lomonosova, E.; Lu, G.; Abdulqader, R.; Tavis, J.E.
Purification and enzymatic characterization of the hepatitis B virus ribonuclease H, a new target for antiviral inhibitors
Antiviral Res.
132
186-195
2016
Hepatitis B virus
Edwards, T.C.; Mani, N.; Dorsey, B.; Kakarla, R.; Rijnbrand, R.; Sofia, M.J.; Tavis, J.E.
Inhibition of HBV replication by N-hydroxyisoquinolinedione and N-hydroxypyridinedione ribonuclease H inhibitors
Antiviral Res.
164
70-80
2019
Hepatitis B virus, Homo sapiens (O60930), Homo sapiens
Davis, R.R.; Shaban, N.M.; Perrino, F.W.; Hollis, T.
Crystal structure of RNA-DNA duplex provides insight into conformational changes induced by RNase H binding
Cell Cycle
14
668-673
2015
Halalkalibacterium halodurans, Halalkalibacterium halodurans C-125
Amon, J.D.; Koshland, D.
RNase H enables efficient repair of R-loop induced DNA damage
eLife
5
e20533
2016
Saccharomyces cerevisiae (P53942), Saccharomyces cerevisiae (Q04740)
Moelling, K.; Broecker, F.; Russo, G.; Sunagawa, S.
RNase H as gene modifier, driver of evolution and antiviral defense
Front. Microbiol.
8
1745
2017
Saccharomyces cerevisiae, Homo sapiens, Mus musculus, Escherichia coli (P0A7Y4)
Burkhart, B.W.; Cubonova, L.; Heider, M.R.; Kelman, Z.; Reeve, J.N.; Santangelo, T.J.
The GAN exonuclease or the Flap endonuclease Fen1 and RNase HII are necessary for viability of Thermococcus kodakarensis
J. Bacteriol.
199
e00141-17
2017
Thermococcus kodakarensis (O74035), Thermococcus kodakarensis
Suresh, G.; Priyakumar, U.
Atomistic details of the molecular recognition of DNA-RNA hybrid duplex by ribonuclease H enzyme
J. Chem. Sci.
127
1701-1713
2015
Halalkalibacterium halodurans (Q9KEI9)
-
Lim, S.B.; Cha, S.H.; Jegal, S.; Jun, H.; Park, S.H.; Jeon, B.Y.; Pak, J.H.; Bakh, Y.Y.; Kim, T.S.; Lee, H.W.
Characterization of Echinostoma cinetorchis endoribonuclease, RNase H
Korean J. Parasitol.
55
451-455
2017
Echinostoma cinetorchis (A0A3S8Z5R6), Echinostoma cinetorchis
Plashkevych, O.; Li, Q.; Chattopadhyaya, J.
How RNase HI (Escherichia coli) promoted site-selective hydrolysis works on RNA in duplex with carba-LNA and LNA substituted antisense strands in an antisense strategy context?
Mol. Biosyst.
13
921-938
2017
Escherichia coli
Liang, X.H.; Sun, H.; Nichols, J.G.; Crooke, S.T.
RNase H1-dependent antisense oligonucleotides are robustly active in directing RNA cleavage in both the cytoplasm and the nucleus
Mol. Ther.
25
2075-2092
2017
Homo sapiens (O60930)
Gupta, R.; Chatterjee, D.; Glickman, M.S.; Shuman, S.
Division of labor among Mycobacterium smegmatis RNase H enzymes RNase H1 activity of RnhA or RnhC is essential for growth whereas RnhB and RnhA guard against killing by hydrogen peroxide in stationary phase
Nucleic Acids Res.
45
1-14
2017
Mycolicibacterium smegmatis, Mycolicibacterium smegmatis (A0QV44), Mycolicibacterium smegmatis (A0R3Q8), Mycolicibacterium smegmatis ATCC 700084, Mycolicibacterium smegmatis ATCC 700084 (A0QV44), Mycolicibacterium smegmatis ATCC 700084 (A0R3Q8), Mycolicibacterium smegmatis mc(2)155, Mycolicibacterium smegmatis mc(2)155 (A0QV44), Mycolicibacterium smegmatis mc(2)155 (A0R3Q8)
Liang, X.H.; Nichols, J.G.; Sun, H.; Crooke, S.T.
Translation can affect the antisense activity of RNase H1-dependent oligonucleotides targeting mRNAs
Nucleic Acids Res.
46
293-313
2018
Homo sapiens (O60930)
Al-Behadili, A.; Uhler, J.P.; Berglund, A.K.; Peter, B.; Doimo, M.; Reyes, A.; Wanrooij, S.; Zeviani, M.; Falkenberg, M.
A two-nuclease pathway involving RNase H1 is required for primer removal at human mitochondrial OriL
Nucleic Acids Res.
46
9471-9483
2018
Homo sapiens (O60930), Homo sapiens
Reverte, M.; Barvik, I.; Vasseur, J.J.; Smietana, M.
RNA-directed off/on switch of RNase H activity using boronic ester formation
Org. Biomol. Chem.
15
8204-8210
2017
Homo sapiens (O60930)
Posse, V.; Al-Behadili, A.; Uhler, J.P.; Clausen, A.R.; Reyes, A.; Zeviani, M.; Falkenberg, M.; Gustafsson, C.M.
RNase H1 directs origin-specific initiation of DNA replication in human mitochondria
PLoS Genet.
15
e1007781
2019
Homo sapiens (O60930)
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